Archive BacDiveID:10.13145/bacdive17856.20230509.8.1

Strain identifier

BacDive ID: 17856

Type strain:

Species: Methanoregula boonei

Strain Designation: 6A8

Strain history: <- S. Brauer, Dept. Microbiology, Cornell Univ., Ithaca, USA; 6A8 <- S. Brauer {2004}

NCBI tax ID(s): 358766 (species)

For citation purpose refer to the digital object identifier (doi) of the current version.

General

@ref: 15567

BacDive-ID: 17856

DSM-Number: 21154

keywords: genome sequence, 16S sequence, Archaea, anaerobe, mesophilic, Gram-negative, rod-shaped

description: Methanoregula boonei 6A8 is an anaerobe, mesophilic, Gram-negative archaeon that was isolated from acidic, ombrotrophic peat bog.

NCBI tax id

NCBI tax id: 358766
Matching level: species

strain history

@ref: 15567
history: <- S. Brauer, Dept. Microbiology, Cornell Univ., Ithaca, USA; 6A8 <- S. Brauer {2004}

doi: 10.13145/bacdive17856.20230509.8.1

Name and taxonomic classification

LPSN

@ref: 20215
description: domain/archaea
keyword: phylum/methanobacteriota
domain: Archaea
phylum: Methanobacteriota
class: Methanomicrobia
order: Methanomicrobiales
family: Methanoregulaceae
genus: Methanoregula
species: Methanoregula boonei
full scientific name: Methanoregula boonei Bräuer et al. 2011
synonyms
- @ref: 20215
- synonym: Methanoregula boonei

@ref: 15567

domain: Archaea

phylum: Euryarchaeota

class: Methanomicrobia

order: Methanomicrobiales

family: Methanoregulaceae

genus: Methanoregula

species: Methanoregula boonei

full scientific name: Methanoregula boonei Bräuer et al. 2011

strain designation: 6A8

type strain: yes

Morphology

cell morphology

@ref: 29819
gram stain: negative
cell shape: rod-shaped
motility: no

colony morphology

@ref: 15567
incubation period: >14 days

Culture and growth conditions

culture medium

@ref: 15567
name: METHANOREGULA (PEAT) MEDIUM (DSMZ Medium 1280)
growth: yes
link: https://mediadive.dsmz.de/medium/1280
composition: Name: METHANOREGULA (PEAT) MEDIUM (DSMZ Medium 1280) Composition: Homo-PIPES 1.56902 g/l Yeast extract 0.19861 g/l TiCl3 0.0819265 g/l 2-Mercaptoethanesulfonate 0.0695134 g/l NH4Cl 0.0268123 g/l Na-acetate 0.0168818 g/l KH2PO4 0.0139027 g/l Nitrilotriacetate 0.00592211 g/l AlK(SO4)2 x 12 H2O 0.0033921 g/l HCl 0.00245804 g/l CaCl2 x 2 H2O 0.00230072 g/l KCl 0.0019861 g/l MgSO4 x 7 H2O 0.00153381 g/l NaOH 0.00141273 g/l FeCl2 x 4 H2O 0.00131751 g/l Pyridoxine hydrochloride 0.000993049 g/l (DL)-alpha-Lipoic acid 0.000496524 g/l Sodium resazurin 0.000496524 g/l Riboflavin 0.000496524 g/l Calcium D-(+)-pantothenate 0.000496524 g/l Nicotinic acid 0.000496524 g/l Thiamine HCl 0.000496524 g/l p-Aminobenzoic acid 0.000496524 g/l Folic acid 0.00019861 g/l Biotin 0.00019861 g/l ZnCl2 7.37412e-05 g/l MnSO4 x 4 H2O 2.55637e-05 g/l NiCl2 x 6 H2O 2.35972e-05 g/l CoCl2 x 6 H2O 2.35972e-05 g/l Na2MoO4 x 2 H2O 2.35972e-05 g/l H3BO3 1.86811e-05 g/l Vitamin B12 9.93049e-06 g/l CuSO4 x 5 H2O 8.84895e-06 g/l Distilled water

culture temp

@ref	growth	type	temperature	range
15567	positive	growth	28	mesophilic
29819	positive	growth	10-40
29819	positive	optimum	36	mesophilic

culture pH

@ref	ability	type	pH
29819	positive	growth	4.5-5.5
29819	positive	optimum	5.1

Physiology and metabolism

oxygen tolerance

@ref	oxygen tolerance
15567	anaerobe
29819	anaerobe

halophily

@ref: 29819
salt: NaCl
growth: positive
tested relation: growth
concentration: 0.002-0.145 %

Isolation, sampling and environmental information

isolation

@ref: 15567
sample type: acidic, ombrotrophic peat bog
geographic location: New York, McLean bog near Ithaca
country: USA
origin.country: USA
continent: North America
latitude: 42.5
longitude: -76.5

isolation source categories

Cat1	Cat2	Cat3
#Environmental	#Terrestrial	#Wetland (Swamp)
#Condition	#Acidic

taxonmaps

@ref: 69479
File name: preview.99_187318.png
url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_17869;96_68885;97_89581;98_121873;99_187318&stattab=map
Last taxonomy: Methanoregula boonei subclade
16S sequence: DQ282124
Sequence Identity:
Total samples: 376
soil counts: 120
aquatic counts: 246
plant counts: 10

Safety information

risk assessment

@ref: 15567
biosafety level: 1
biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

@ref: 15567
description: Candidatus Methanoregula boonei strain 6A8 16S ribosomal RNA gene, partial sequence; 16S-23S rRNA intergenic spacer, complete sequence; and 23S ribosomal RNA gene, partial sequence
accession: DQ282124
length: 1732
database: ena
NCBI tax ID: 456442

Genome sequences

@ref	description	accession	assembly level	database	NCBI tax ID
66792	Methanoregula boonei 6A8	GCA_000017625	complete	ncbi	456442
66792	Methanoregula boonei 6A8	640753014	complete	img	456442
66792	Methanoregula boonei 6A8	456442.19	complete	patric	456442

GC content

@ref	GC-content	method
15567	54.5	sequence analysis
29819	54.5

Genome-based predictions

predictions

trait	prediction	confidence	training_data
motile	no	91.335	no
flagellated	no	96.957	yes
gram-positive	no	96.69	yes
anaerobic	yes	98.712	yes
aerobic	no	95.122	yes
halophile	no	96.285	yes
spore-forming	no	95.671	no
thermophile	no	86.761	yes
glucose-util	yes	61.974	no
glucose-ferment	no	64.71	no

External links

@ref: 15567

culture collection no.: DSM 21154, JCM 14090

straininfo link

@ref: 86847
straininfo: 406415

literature

topic: Phylogeny
Pubmed-ID: 20154331
title: Methanoregula boonei gen. nov., sp. nov., an acidiphilic methanogen isolated from an acidic peat bog.
authors: Brauer SL, Cadillo-Quiroz H, Ward RJ, Yavitt JB, Zinder SH
journal: Int J Syst Evol Microbiol
DOI: 10.1099/ijs.0.021782-0
year: 2010
mesh: Carbon Dioxide/metabolism, Cluster Analysis, Culture Media/chemistry, DNA, Archaeal/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, *Environmental Microbiology, Hydrogen/metabolism, Hydrogen-Ion Concentration, Methane/metabolism, Methanomicrobiales/*classification/genetics/*isolation & purification/physiology, Molecular Sequence Data, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Sodium Chloride/metabolism, Soil, Temperature, United States, Wetlands
topic2: Metabolism

Reference

@id	authors	catalogue	doi/url	title	ID_cross_reference	pubmed
15567	Curators of the DSMZ	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 21154)	https://www.dsmz.de/collection/catalogue/details/culture/DSM-21154
20215	Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.		10.1099/ijsem.0.004332	List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ
29819	Barberan A, Caceres Velazquez H, Jones S, Fierer N.		10.1128/mSphere.00237-17	Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information	26196	28776041
66792	Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann		https://diaspora-project.de/progress.html#genomes	Automatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)
69479	João F Matias Rodrigues, Janko Tackmann,Gregor Rot, Thomas SB Schmidt, Lukas Malfertheiner, Mihai Danaila,Marija Dmitrijeva, Daniela Gaio, Nicolas Näpflin and Christian von Mering. University of Zurich.		https://microbeatlas.org/	MicrobeAtlas 1.0 beta
86847	Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.		10.60712/SI-ID406415.1	StrainInfo: A central database for resolving microbial strain identifiers

General

NCBI tax id

strain history

Name and taxonomic classification

LPSN

synonyms

Morphology

cell morphology

colony morphology

Culture and growth conditions

culture medium

culture temp

culture pH

Physiology and metabolism

oxygen tolerance

halophily

Isolation, sampling and environmental information

isolation

isolation source categories

taxonmaps

Safety information

risk assessment

Sequence information

16S sequences

Genome sequences

GC content

Genome-based predictions

predictions

External links

straininfo link

literature

Reference